6Y9V
Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-8,13)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
B | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
E [auth G] | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
F [auth H] | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
H [auth N] | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
J [auth d] | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
K [auth e] | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
L [auth j] | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
M [auth k] | SCOP2B Superfamily | Retrovirus capsid dimerization domain-like | 8077052 | 3001819 | SCOP2B (2022-06-29) |
G [auth J] | SCOP2B Superfamily | Cyclophilin-like | 8043341 | 3000168 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | PF00607 | e6y9vA1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
B | PF19317 | e6y9vB1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
B | PF00607 | e6y9vB2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
C | PF19317 | e6y9vC1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
C | PF00607 | e6y9vC2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
D | PF19317 | e6y9vD1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
D | PF00607 | e6y9vD2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
E [auth G] | PF19317 | e6y9vG1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
E [auth G] | PF00607 | e6y9vG2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
F [auth H] | PF19317 | e6y9vH2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
F [auth H] | PF00607 | e6y9vH1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
H [auth N] | PF19317 | e6y9vN1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
I [auth Y] | PF00607 | e6y9vY1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
J [auth d] | PF19317 | e6y9vd2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
J [auth d] | PF00607 | e6y9vd1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
K [auth e] | PF19317 | e6y9ve2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
K [auth e] | PF00607 | e6y9ve1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
L [auth j] | PF19317 | e6y9vj1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
M [auth k] | PF19317 | e6y9vk2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
M [auth k] | PF00607 | e6y9vk1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
G [auth J] | PF00160 | e6y9vJ1 | A: beta barrels | X: Cyclophilin-like (From Topology) | H: Cyclophilin-like (From Topology) | T: Cyclophilin-like | F: PF00160 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00607 | gag protein p24 N-terminal domain (Gag_p24) | gag protein p24 N-terminal domain | p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro. | Domain | |
PF19317 | Gag protein p24 C-terminal domain (Gag_p24_C) | Gag protein p24 C-terminal domain | p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro. | Domain | |
G [auth J] | PF00160 | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD (Pro_isomerase) | Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD | The peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond pr ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR000071 | Immunodeficiency lentiviral matrix, N-terminal | Domain | |
IPR045345 | Retroviral nucleocapsid Gag protein p24, C-terminal domain | Domain | |
IPR036875 | Zinc finger, CCHC-type superfamily | Homologous Superfamily | |
IPR001878 | Zinc finger, CCHC-type | Domain | |
IPR008919 | Retrovirus capsid, N-terminal | Homologous Superfamily | |
IPR010999 | Retroviral matrix protein | Homologous Superfamily | |
IPR012344 | Matrix protein, lentiviral and alpha-retroviral, N-terminal | Homologous Superfamily | |
IPR014817 | Gag protein p6 | Domain | |
IPR008916 | Retrovirus capsid, C-terminal | Homologous Superfamily | |
G [auth J] | IPR029000 | Cyclophilin-like domain superfamily | Homologous Superfamily |
G [auth J] | IPR002130 | Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain | Domain |
G [auth J] | IPR024936 | Cyclophilin-type peptidyl-prolyl cis-trans isomerase | Family |
G [auth J] | IPR020892 | Cyclophilin-type peptidyl-prolyl cis-trans isomerase, conserved site | Conserved Site |